PROVEAN¶

Description¶

PROVEAN (Protein Variation Effect Analyzer) is a software tool which predicts whether an amino acid substitution or indel has an impact on the biological function of a protein.

PROVEAN is useful for filtering sequence variants to identify nonsynonymous or indel variants that are predicted to be functionally important.

The performance of PROVEAN is comparable to popular tools such as SIFT or PolyPhen-2.

A fast computation approach to obtain pairwise sequence alignment scores enabled the generation of precomputed PROVEAN predictions for 20 single AA substitutions and a single AA deletion at every amino acid position of all protein sequences in human and mouse.

Environment Modules¶

Run module spider provean to find out what environment modules are available for this application.

Environment Variables¶

HPC_PROVEAN_DIR - installation directory
HPC_PROVEAN_BIN - executable directory

Additional Usage Information¶

Run the following command to get information on arguments and commands.

provean.sh --help

Citation¶

If you publish research that uses provean you have to cite it as follows:

Choi Y, Chan AP (2015) PROVEAN web server: a tool to predict the functional effect of amino acid substitutions and indels. Bioinformatics 31(16): 2745-2747.

Categories¶

biology, genomics